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TranscriptomicsGlobal absolute quantification reveals tight regulation of protein expression in single Xenopus eggs
Recent developments in genomic sequencing technology have enabled comprehensive transcriptome analyses of single cells. In contrast, single cell proteomics analyses have been restricted to targeted analyses, for example using flow cytometry with GFP fusions or mass cytometry. Here, we performed glob...
ORGANISM(S): Xenopus laevis 
2014-08-04 | E-GEOD-56586 | biostudies-arrayexpress
TranscriptomicsChromatin immunoprecipitation to identify CUG-BP1/EDEN-BP target mRNAs in Xenopus tropicalis eggs
Identification of RNA bound to the RNA-binding protein CUGBP1/EDENBP in Xenopus tropicalis eggs.
ORGANISM(S): Xenopus tropicalis 
2008-02-21 | E-MEXP-1466 | biostudies-arrayexpress
GenomicsA Hierarchy of H3K4me3 and H3K27me3 Acquisition in Spatial Gene Regulation in Xenopus Embryos
Epigenetic mechanisms set apart the active and inactive regions in the genome of multicellular organisms to produce distinct cell fates during embryogenesis. Here, we report on the epigenetic and transcriptome genome-wide maps of gastrula-stage Xenopus tropicalis embryos using massive parallel seque...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2009-09-15 | E-GEOD-14025 | biostudies-arrayexpress
TranscriptomicsMapping gene expression in two Xenopus: evolutionary constraints and developmental flexibility
Variation in gene expression is known to be important for morphological evolution, however little is known about its general propensity. Here we examine a pair of frogs M-bM-^@M-^S Xenopus laevis and Xenopus tropicalis M-bM-^@M-^S with highly similar embryology, and ask how their transcriptomes comp...
ORGANISM(S): Xenopus laevis 
2011-06-01 | E-GEOD-27227 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of Xenopus laevis early embryos to investigate the roles of Nodal, Mixer and Sox17 in endoderm formation
A conserved molecular pathway has emerged controlling endoderm formation in Xenopus zebrafish and mice. Key genes in this pathway include Nodal ligands and transcription factors of the Mix-like paired homeodomain class, Gata4-6 zinc finger factors and Sox17 HMG domain proteins. While a linear epista...
ORGANISM(S): Xenopus laevis 
2007-10-05 | E-GEOD-4448 | biostudies-arrayexpress
TranscriptomicsChIP-chip Designs to Interrogate the Xenopus Embryo Genome for Transcription Factor Binding and Epigenetic Regulation
Background: Chromatin immunoprecipitation combined with genome tile path microarrays or deep sequencing can be used to study genome-wide epigenetic profiles and the transcription factor binding repertoire. Although well studied in a variety of cell lines, these genome-wide profiles have so far been ...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2010-05-17 | E-GEOD-19413 | biostudies-arrayexpress
TranscriptomicsGene expression in Xenopus laevis embryogenesis
Analysis of whole body of unfertilized eggs and two-cell stage, 16-cell stage, stage 8, stage 9, stage 10.5, stage 12, stage 15, stage 20, stage 25, stage 30, stage 35 and stage 40 embryos. Results provide insight into the global molecular changes in Xenopus embryogenesis. Gene expressions in intact...
ORGANISM(S): Xenopus laevis 
2015-09-05 | E-GEOD-40620 | biostudies-arrayexpress
TranscriptomicsDeep sequencing of small RNAs in the Xenopus tropicalis gastrula
Transposable elements comprise a large proportion of animal genomes. Transcripts of transposable elements are a source for the synthesis of endogenous siRNAs and piRNAs. In order to determine if small RNAs mapped to expressed Tc1-like elements are present during early Xenopus tropicalis development,...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2011-06-18 | E-GEOD-30067 | biostudies-arrayexpress
MetabolomicsMetabolic profiling of identified single cells in Xenopus laevis embryos
Not available
ORGANISM(S): Xenopus laevis 
ST001028 | MetabolomicsWorkbench
TranscriptomicsTranscription profiling of Xenopus laevis developing notochord
We screened for differentially expressed genes in the developing notochord using the Affymetrix microarray system in Xenopus laevis. At late gastrula, we dissected four regions from the embryo, anterior mesoderm, posterior mesoderm, notochord and presomitic mesoderm. Three types of comparison were c...
ORGANISM(S): Xenopus laevis 
2006-12-31 | E-MEXP-717 | biostudies-arrayexpress
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